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B3DVG5

- RBL_METI4

UniProt

B3DVG5 - RBL_METI4

Protein

Ribulose bisphosphate carboxylase large chain

Gene

cbbL

Organism
Methylacidiphilum infernorum (isolate V4) (Methylokorus infernorum (strain V4))
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 39 (01 Oct 2014)
      Sequence version 1 (22 Jul 2008)
      Previous versions | rss
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    Functioni

    RuBisCO catalyzes two reactions: the carboxylation of D-ribulose 1,5-bisphosphate, the primary event in carbon dioxide fixation, as well as the oxidative fragmentation of the pentose substrate. Both reactions occur simultaneously and in competition at the same active site.UniRule annotation

    Catalytic activityi

    2 3-phospho-D-glycerate + 2 H+ = D-ribulose 1,5-bisphosphate + CO2 + H2O.UniRule annotation
    3-phospho-D-glycerate + 2-phosphoglycolate = D-ribulose 1,5-bisphosphate + O2.UniRule annotation

    Cofactori

    Binds 1 magnesium ion per subunit.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Binding sitei126 – 1261Substrate; in homodimeric partnerUniRule annotation
    Binding sitei176 – 1761SubstrateUniRule annotation
    Active sitei178 – 1781Proton acceptorUniRule annotation
    Binding sitei180 – 1801SubstrateUniRule annotation
    Metal bindingi204 – 2041Magnesium; via carbamate groupUniRule annotation
    Metal bindingi206 – 2061MagnesiumUniRule annotation
    Metal bindingi207 – 2071MagnesiumUniRule annotation
    Active sitei296 – 2961Proton acceptorUniRule annotation
    Binding sitei297 – 2971SubstrateUniRule annotation
    Binding sitei329 – 3291SubstrateUniRule annotation
    Sitei336 – 3361Transition state stabilizerUniRule annotation
    Binding sitei381 – 3811SubstrateUniRule annotation

    GO - Molecular functioni

    1. magnesium ion binding Source: UniProtKB-HAMAP
    2. monooxygenase activity Source: UniProtKB-KW
    3. ribulose-bisphosphate carboxylase activity Source: UniProtKB-HAMAP

    GO - Biological processi

    1. reductive pentose-phosphate cycle Source: UniProtKB-KW

    Keywords - Molecular functioni

    Lyase, Monooxygenase, Oxidoreductase

    Keywords - Biological processi

    Calvin cycle, Carbon dioxide fixation

    Keywords - Ligandi

    Magnesium, Metal-binding

    Enzyme and pathway databases

    BioCyciMINF481448:GJEI-1289-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    Ribulose bisphosphate carboxylase large chainUniRule annotation (EC:4.1.1.39UniRule annotation)
    Short name:
    RuBisCO large subunitUniRule annotation
    Gene namesi
    Name:cbbLUniRule annotation
    Synonyms:rbcLUniRule annotation
    Ordered Locus Names:Minf_1264
    OrganismiMethylacidiphilum infernorum (isolate V4) (Methylokorus infernorum (strain V4))
    Taxonomic identifieri481448 [NCBI]
    Taxonomic lineageiBacteriaVerrucomicrobiaunclassified VerrucomicrobiaMethylacidiphilalesMethylacidiphilaceaeMethylacidiphilum
    ProteomesiUP000009149: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 486486Ribulose bisphosphate carboxylase large chainPRO_0000355750Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei204 – 2041N6-carboxylysineUniRule annotation

    Proteomic databases

    PRIDEiB3DVG5.

    Interactioni

    Subunit structurei

    Heterohexadecamer of 8 large chains and 8 small chains.UniRule annotation

    Protein-protein interaction databases

    STRINGi481448.Minf_1264.

    Structurei

    3D structure databases

    ProteinModelPortaliB3DVG5.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Sequence similaritiesi

    Belongs to the RuBisCO large chain family. Type I subfamily.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG1850.
    HOGENOMiHOG000230831.
    KOiK01601.
    OMAiCTPLKQA.
    OrthoDBiEOG6ZKXMS.

    Family and domain databases

    Gene3Di3.20.20.110. 1 hit.
    3.30.70.150. 1 hit.
    HAMAPiMF_01338. RuBisCO_L_type1.
    InterProiIPR020878. RuBisCo_large_chain_AS.
    IPR020888. RuBisCO_lsu.
    IPR000685. RuBisCO_lsu_C.
    IPR017443. RuBisCO_lsu_fd_N.
    IPR017444. RuBisCO_lsu_N.
    [Graphical view]
    PfamiPF00016. RuBisCO_large. 1 hit.
    PF02788. RuBisCO_large_N. 1 hit.
    [Graphical view]
    SUPFAMiSSF51649. SSF51649. 1 hit.
    SSF54966. SSF54966. 1 hit.
    PROSITEiPS00157. RUBISCO_LARGE. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    B3DVG5-1 [UniParc]FASTAAdd to Basket

    « Hide

    MVIAGDGKAG AKKSRWSAGV TPYAEMGYYN ADYVPKDTDI LAAFRFVPQE    50
    GVEPIEAGAA VAGESSTATW TVVWTDRLTA YEHYQGKCFR VEPVPGTNQY 100
    IAFIAYDLDL FEEGSIANMS SSIIGNVFGF KALKSLRLED LRIPPHYVKT 150
    FQGPAHGIMM EREYLNKYGR PLLGATVKPK LGLSAKNYGR VVYEALRGGL 200
    DFTKDDENIN SQPFMRWRDR WLFCMEAVNK AMAETGEIKG HYLNVTAATM 250
    EEMYERAEFA KELGSVIIMV DLTAGFTAIQ SMAKWCRKNG VLLHLHRAGH 300
    STYTRQKIHG VNFRVIAKWM RLAGVDHIHA GTVVGKLEGD LHSVQGYYKT 350
    LRTQYTEADP LLGLYFEQDW ASMPGVMPVA SGGIHAGQMH LLLSYLGEDT 400
    ILQFGGGTIG HPDGIAAGAT ANRVAVEVMV QARNEGKDIL REGPEILEKA 450
    CRWSPALAKA IETWKDISFE FESTDVPDAV AMPTIA 486
    Length:486
    Mass (Da):53,694
    Last modified:July 22, 2008 - v1
    Checksum:iA0A9CE650CA08146
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000975 Genomic DNA. Translation: ACD83318.1.
    RefSeqiYP_001939916.1. NC_010794.1.

    Genome annotation databases

    EnsemblBacteriaiACD83318; ACD83318; Minf_1264.
    GeneIDi6352199.
    KEGGimin:Minf_1264.
    PATRICi22491667. VBIMetInf111569_1320.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000975 Genomic DNA. Translation: ACD83318.1 .
    RefSeqi YP_001939916.1. NC_010794.1.

    3D structure databases

    ProteinModelPortali B3DVG5.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 481448.Minf_1264.

    Proteomic databases

    PRIDEi B3DVG5.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ACD83318 ; ACD83318 ; Minf_1264 .
    GeneIDi 6352199.
    KEGGi min:Minf_1264.
    PATRICi 22491667. VBIMetInf111569_1320.

    Phylogenomic databases

    eggNOGi COG1850.
    HOGENOMi HOG000230831.
    KOi K01601.
    OMAi CTPLKQA.
    OrthoDBi EOG6ZKXMS.

    Enzyme and pathway databases

    BioCyci MINF481448:GJEI-1289-MONOMER.

    Family and domain databases

    Gene3Di 3.20.20.110. 1 hit.
    3.30.70.150. 1 hit.
    HAMAPi MF_01338. RuBisCO_L_type1.
    InterProi IPR020878. RuBisCo_large_chain_AS.
    IPR020888. RuBisCO_lsu.
    IPR000685. RuBisCO_lsu_C.
    IPR017443. RuBisCO_lsu_fd_N.
    IPR017444. RuBisCO_lsu_N.
    [Graphical view ]
    Pfami PF00016. RuBisCO_large. 1 hit.
    PF02788. RuBisCO_large_N. 1 hit.
    [Graphical view ]
    SUPFAMi SSF51649. SSF51649. 1 hit.
    SSF54966. SSF54966. 1 hit.
    PROSITEi PS00157. RUBISCO_LARGE. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Complete genome sequence of the extremely acidophilic methanotroph isolate V4, Methylacidiphilum infernorum, a representative of the bacterial phylum Verrucomicrobia."
      Hou S., Makarova K.S., Saw J.H., Senin P., Ly B.V., Zhou Z., Ren Y., Wang J., Galperin M.Y., Omelchenko M.V., Wolf Y.I., Yutin N., Koonin E.V., Stott M.B., Mountain B.W., Crowe M.A., Smirnova A.V., Dunfield P.F.
      , Feng L., Wang L., Alam M.
      Biol. Direct 3:26-26(2008) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: Isolate V4.

    Entry informationi

    Entry nameiRBL_METI4
    AccessioniPrimary (citable) accession number: B3DVG5
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 16, 2008
    Last sequence update: July 22, 2008
    Last modified: October 1, 2014
    This is version 39 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    The basic functional RuBisCO is composed of a large chain homodimer in a "head-to-tail" conformation. In form I RuBisCO this homodimer is arranged in a barrel-like tetramer with the small subunits forming a tetrameric "cap" on each end of the "barrel".UniRule annotation

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3